Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 96 of 216
Found at i:29803395 original size:44 final size:44
Alignment explanation
Indices: 29803335--29803445 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
29803325 TCTACTCTAT
* * *
29803335 TGCAACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCATTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TAGTGGCTTTAATCCAGTCCAC
* * * **
29803379 TGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGGTCCAC
1 TGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATCCAGTCCAC
*
29803423 TGCAACTTTAGGGAGATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
29803446 CGCCATCTTC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.02
44 54 0.98
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTAGTGGCTTTAATCCAGTCCAC
Found at i:29804008 original size:50 final size:50
Alignment explanation
Indices: 29803949--29804043 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
29803939 TCCAAGTCTT
**
29803949 AACACCAGGG-AGATAAGATTTGCCATCGTGGCTTCAATCTATTCCGCTAC
1 AACACCAGGGAAG-TAAGATTCACCATCGTGGCTTCAATCTATTCCGCTAC
** *
29803999 AACACCAGGGAAGTAAGATTCACTGTCGTGGCTTCAATCTTTTCC
1 AACACCAGGGAAGTAAGATTCACCATCGTGGCTTCAATCTATTCC
29804044 ATTGCAACGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 37 0.95
51 2 0.05
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (50 bp):
AACACCAGGGAAGTAAGATTCACCATCGTGGCTTCAATCTATTCCGCTAC
Found at i:29804164 original size:43 final size:43
Alignment explanation
Indices: 29804112--29804245 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 43
29804102 AAGGCGAGAT
*
29804112 CTGCTATCTTTAACCTACTCCACTGCTGCTCAGGGAGACAAGG
1 CTGCTATCTTTAACCTACTCCACTGCTACTCAGGGAGACAAGG
* ** * * * * ** *
29804155 CTGGTATCTTCGATCTACTTCACTGCCAATACAGAAAGACAAGAT
1 CTGCTATCTTTAACCTACTCCACTGCTACT-CAGGGAGACAAG-G
*
29804200 CTGCTAT-TTTCAACCTACTCCACTGCTACTCAGGGAGATAAGG
1 CTGCTATCTTT-AACCTACTCCACTGCTACTCAGGGAGACAAGG
29804243 CTG
1 CTG
29804246 AAGTTTCACC
Statistics
Matches: 66, Mismatches: 22, Indels: 6
0.70 0.23 0.06
Matches are distributed among these distances:
43 25 0.38
44 21 0.32
45 20 0.30
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
CTGCTATCTTTAACCTACTCCACTGCTACTCAGGGAGACAAGG
Found at i:29804222 original size:88 final size:88
Alignment explanation
Indices: 29804073--29804245 Score: 258
Period size: 88 Copynumber: 2.0 Consensus size: 88
29804063 AAGACTAATG
* * * * *
29804073 TCTTCGATCTGCTTCACTGCCAGCACAGGAAGGCGAGATCTGCTATCTTTAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAACACAGAAAGACAAGATCTGCTATCTTTAACCTACTCCACTGC
*
29804138 TGCTCAGGGAGACAAGGCTGGTA
66 TACTCAGGGAGACAAGGCTGGTA
*
29804161 TCTTCGATCTACTTCACTGCCAATACAGAAAGACAAGATCTGCTAT-TTTCAACCTACTCCACTG
1 TCTTCGATCTACTTCACTGCCAACACAGAAAGACAAGATCTGCTATCTTT-AACCTACTCCACTG
*
29804225 CTACTCAGGGAGATAAGGCTG
65 CTACTCAGGGAGACAAGGCTG
29804246 AAGTTTCACC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
87 3 0.04
88 73 0.96
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTGCCAACACAGAAAGACAAGATCTGCTATCTTTAACCTACTCCACTGC
TACTCAGGGAGACAAGGCTGGTA
Found at i:29804224 original size:45 final size:44
Alignment explanation
Indices: 29804108--29804225 Score: 105
Period size: 45 Copynumber: 2.7 Consensus size: 44
29804098 CAGGAAGGCG
*** **
29804108 AGATCTGCTATCTTT-AACCTACTCCACTGCTGCTCAGGGAGACA
1 AGATCTGCTAT-TTTCAACCTACTCCACTGCCAATCAGAAAGACA
* * * * * *
29804152 AG-GCTGGTATCTTCGATCTACTTCACTGCCAATACAGAAAGACA
1 AGATCTGCTATTTTCAACCTACTCCACTGCCAAT-CAGAAAGACA
29804196 AGATCTGCTATTTTCAACCTACTCCACTGC
1 AGATCTGCTATTTTCAACCTACTCCACTGC
29804226 TACTCAGGGA
Statistics
Matches: 54, Mismatches: 17, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
42 2 0.04
43 19 0.35
44 12 0.22
45 21 0.39
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (44 bp):
AGATCTGCTATTTTCAACCTACTCCACTGCCAATCAGAAAGACA
Found at i:29815923 original size:40 final size:40
Alignment explanation
Indices: 29815886--29816110 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
29815876 GCTACTCGTT
*
29815886 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
29815926 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
29815966 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
29816005 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * ** *
29816045 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCATTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
29816086 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29816111 CATCATTCAA
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 117 0.70
41 15 0.09
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29815997 original size:79 final size:80
Alignment explanation
Indices: 29815886--29816057 Score: 244
Period size: 79 Copynumber: 2.2 Consensus size: 80
29815876 GCTACTCGTT
*
29815886 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-C
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTT-ACTCC
29815949 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* * *
29815966 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTACTCCG
*
29816029 GATTTAGTATCTCGCA
65 GATTTAGTAACTCGCA
29816045 CAAATGCCTTCGG
1 CAAATGCCTTCGG
29816058 ATCTTAGTCC
Statistics
Matches: 84, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
78 6 0.07
79 64 0.76
80 14 0.17
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTACTCCGG
ATTTAGTAACTCGCA
Found at i:29816071 original size:119 final size:120
Alignment explanation
Indices: 29815886--29816110 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 120
29815876 GCTACTCGTT
29815886 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGG
* *
29815951 ATTTAGT-AACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTCAACTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * *
29816005 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTT-AGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT
* **
29816066 CCGGATATGGTCATTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 -CGGATATAGTCAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
29816111 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 8 0.09
119 61 0.67
120 22 0.24
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGG
ATATAGTCAACTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:29819486 original size:21 final size:21
Alignment explanation
Indices: 29819444--29819487 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
29819434 AACACAAATT
* *
29819444 AATAAACAAATGAAATAAAAA
1 AATAAAAAAATGAAAGAAAAA
29819465 AATAAAAAAAT-AAAGAATAAA
1 AATAAAAAAATGAAAGAA-AAA
29819486 AA
1 AA
29819488 GTACATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (21 bp):
AATAAAAAAATGAAAGAAAAA
Found at i:29819747 original size:31 final size:31
Alignment explanation
Indices: 29819714--29819786 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 31
29819704 ACGTCTATAT
29819714 ATATAAATATA-AAAAATATTCATT-AAAAA
1 ATATAAATATAGAAAAATATTCATTGAAAAA
**
29819743 ATATAAATATAGAAAAATATTTGTTAGAAAAAA
1 ATATAAATATAGAAAAATATTCATT-G-AAAAA
29819776 ATATAAATATA
1 ATATAAATATA
29819787 TATACATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 11 0.29
30 11 0.29
33 16 0.42
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (31 bp):
ATATAAATATAGAAAAATATTCATTGAAAAA
Found at i:29819758 original size:16 final size:15
Alignment explanation
Indices: 29819714--29819762 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
29819704 ACGTCTATAT
29819714 ATATAAATATAAAAA
1 ATATAAATATAAAAA
**
29819729 ATATTCAT-TAAAAA
1 ATATAAATATAAAAA
29819743 ATATAAATATAGAAAA
1 ATATAAATATA-AAAA
29819759 ATAT
1 ATAT
29819763 TTGTTAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 12 0.43
15 8 0.29
16 8 0.29
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATATAAATATAAAAA
Found at i:29824787 original size:16 final size:17
Alignment explanation
Indices: 29824763--29824795 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
29824753 AATGTTTCAA
29824763 AAAAAGAAAAAA-AAAG
1 AAAAAGAAAAAACAAAG
*
29824779 AAAAGGAAAAAACAAAG
1 AAAAAGAAAAAACAAAG
29824796 TTACAAGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAACAAAG
Found at i:29832640 original size:42 final size:42
Alignment explanation
Indices: 29832593--29832684 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
29832583 ATATTCTAGG
** *
29832593 ATTATTTTATTTTATCTTTTAGTAGTCTATTAGAATAAGGGA
1 ATTATTTTACCTTATCTGTTAGTAGTCTATTAGAATAAGGGA
* *
29832635 ATTATTTTCCCTTATCTGTTAGTAGTTTATTAGAATAAGGGA
1 ATTATTTTACCTTATCTGTTAGTAGTCTATTAGAATAAGGGA
29832677 ATTATTTT
1 ATTATTTT
29832685 TCCAATTAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (42 bp):
ATTATTTTACCTTATCTGTTAGTAGTCTATTAGAATAAGGGA
Found at i:29837144 original size:26 final size:26
Alignment explanation
Indices: 29837108--29837176 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
29837098 TTTACATCAT
*
29837108 TGCTCACACGAGCTGTGAAATGGGTA
1 TGCTCACACGAGCTGTGAAATGGGCA
* *
29837134 TGCTCACACGAGCTGTAAAATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCA
*
29837160 TGCCCACACGAGCTGTG
1 TGCTCACACGAGCTGTG
29837177 GGTCGGAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.25, C:0.26, G:0.29, T:0.20
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCA
Found at i:29841461 original size:14 final size:14
Alignment explanation
Indices: 29841442--29841471 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29841432 CCCTTATCCC
29841442 TTGCCATAGTATCT
1 TTGCCATAGTATCT
*
29841456 TTGCCATCGTATCT
1 TTGCCATAGTATCT
29841470 TT
1 TT
29841472 ATTTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.23, G:0.13, T:0.47
Consensus pattern (14 bp):
TTGCCATAGTATCT
Found at i:29847814 original size:51 final size:51
Alignment explanation
Indices: 29847686--29847878 Score: 178
Period size: 51 Copynumber: 3.8 Consensus size: 51
29847676 TGAAAGTGAA
* * * * * *
29847686 AGTGATGGTCACGTGTGCAGTACTATGTGCAGGCTACTACGTGTATCAGA-
1 AGTGATGATCACATGTGTAGTACTATGTGTAGGCTACTATGCGTATCAGAT
* *
29847736 A-TGATAGGTCACATGTGTAGTACTATGTGTAGGCTACTATGCGTA-CTGGAT
1 AGTGAT-GATCACATGTGTAGTACTATGTGTAGGCTACTATGCGTATC-AGAT
* * * * * * * *
29847787 AGCT-TTGATCGCGTGTGTAGTACTATGTGCAAGCTCCTACGTGTATCAGAT
1 AG-TGATGATCACATGTGTAGTACTATGTGTAGGCTACTATGCGTATCAGAT
*
29847838 AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTATG
1 AGTGATGATCACATGTGTAGTACTATGTGTAGGCTACTATG
29847879 TGAACCGGCA
Statistics
Matches: 112, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
49 5 0.04
50 38 0.34
51 66 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (51 bp):
AGTGATGATCACATGTGTAGTACTATGTGTAGGCTACTATGCGTATCAGAT
Found at i:29847917 original size:101 final size:99
Alignment explanation
Indices: 29847697--29847886 Score: 265
Period size: 102 Copynumber: 1.9 Consensus size: 99
29847687 GTGATGGTCA
* *
29847697 CGTGTGCAGTACTATGTGCAGGCTACTACGTGTATCAGAATGATAGGTCACATGTGTAGTACTAT
1 CGTGTGTA-TACTATGTGCAAGCTACTACGTGTATCAGAATGATAGGTCACATGTGTAGTACTAT
* * *
29847762 GTGTAGGCTACTATGCGTACTGGATAGCTTTGATCG
65 GTGTAGGCTACTATGCGAACCGGATA-CTTTGATAG
*
29847798 CGTGTGTAGTACTATGTGCAAGCTCCTACGTGTATCAGATAGTGAT-GGTCACATGTGTAGTACT
1 CGTGTGTA-TACTATGTGCAAGCTACTACGTGTATCAGA-A-TGATAGGTCACATGTGTAGTACT
*
29847862 ATGTGTAGGCTACTATGTGAACCGG
63 ATGTGTAGGCTACTATGCGAACCGG
29847887 CATCATTAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 36 0.44
102 41 0.51
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (99 bp):
CGTGTGTATACTATGTGCAAGCTACTACGTGTATCAGAATGATAGGTCACATGTGTAGTACTATG
TGTAGGCTACTATGCGAACCGGATACTTTGATAG
Found at i:29848141 original size:37 final size:38
Alignment explanation
Indices: 29848081--29848153 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
29848071 ATGTGTAGAA
* **
29848081 TTGAATTGAATATTGACTTGAAAGTGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAGTGAAAAAGTGAATT
*
29848119 TTGAATTTAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAGTGAAAAAGTGAA
29848154 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAGTGAAAAAGTGAATT
Found at i:29849549 original size:22 final size:23
Alignment explanation
Indices: 29849510--29849554 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
29849500 GGCCCTATTT
*
29849510 GTTATAATTATAGTATTT-TAAA
1 GTTATAATTAAAGTATTTATAAA
29849532 GTTATAATGTAAAG-ATTTATAAA
1 GTTATAAT-TAAAGTATTTATAAA
29849555 AGCATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (23 bp):
GTTATAATTAAAGTATTTATAAA
Found at i:29851349 original size:29 final size:29
Alignment explanation
Indices: 29851317--29851424 Score: 121
Period size: 29 Copynumber: 3.7 Consensus size: 29
29851307 AACTTTGACT
29851317 ATCGAATATGAAAAGGGATGGTGACAACC
1 ATCGAATATGAAAAGGGATGGTGACAACC
* * ** *
29851346 ATCGAATATGAAAAGGGATAGCT-TCGGCT
1 ATCGAATATGAAAAGGGAT-GGTGACAACC
*
29851375 ATCGATTATGAAAAGGGATGGTGACAACC
1 ATCGAATATGAAAAGGGATGGTGACAACC
29851404 ATC-AATTAATGAAAAGGGATG
1 ATCGAA-T-ATGAAAAGGGATG
29851425 ATTTCGGCCA
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
28 3 0.05
29 45 0.71
30 15 0.24
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACAACC
Found at i:29851377 original size:58 final size:59
Alignment explanation
Indices: 29851315--29851446 Score: 198
Period size: 58 Copynumber: 2.3 Consensus size: 59
29851305 ATAACTTTGA
29851315 CTATCGAATATGAAAAGGGATGGTGACAACCATCGAA-T-ATGAAAAGGGAT-AGCTTCGG
1 CTATCGAATATGAAAAGGGATGGTGACAACCATC-AATTAATGAAAAGGGATGA-CTTCGG
* *
29851373 CTATCGATTATGAAAAGGGATGGTGACAACCATCAATTAATGAAAAGGGATGATTTCGG
1 CTATCGAATATGAAAAGGGATGGTGACAACCATCAATTAATGAAAAGGGATGACTTCGG
*
29851432 CCATCGAATATGAAA
1 CTATCGAATATGAAA
29851447 TGAGCCAGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
57 2 0.03
58 34 0.51
59 30 0.45
60 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (59 bp):
CTATCGAATATGAAAAGGGATGGTGACAACCATCAATTAATGAAAAGGGATGACTTCGG
Found at i:29851436 original size:30 final size:29
Alignment explanation
Indices: 29851344--29851446 Score: 77
Period size: 29 Copynumber: 3.5 Consensus size: 29
29851334 ATGGTGACAA
*
29851344 CCATCGAA-TATGAAAAGGGAT-AGCTTCGG
1 CCATC-AATTATGAAAAGGGATGA-TTTCGG
* * * ** **
29851373 CTATCGATTATGAAAAGGGATGGTGACAA
1 CCATCAATTATGAAAAGGGATGATTTCGG
29851402 CCATCAATTAATGAAAAGGGATGATTTCGG
1 CCATCAATT-ATGAAAAGGGATGATTTCGG
29851432 CCATCGAA-TATGAAA
1 CCATC-AATTATGAAA
29851447 TGAGCCAGTT
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
28 1 0.02
29 31 0.56
30 21 0.38
31 2 0.04
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (29 bp):
CCATCAATTATGAAAAGGGATGATTTCGG
Found at i:29860656 original size:50 final size:50
Alignment explanation
Indices: 29860523--29860667 Score: 166
Period size: 50 Copynumber: 2.9 Consensus size: 50
29860513 CCGAATCACC
* * * * *
29860523 ATTTGTGGACAAGCCACCACTGATTTGAAGATAAACTACCA-TTGATAACA
1 ATTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACAT-ATAACA
* * * *
29860573 CTTTGCGGACAAGCCACAACTTATATGCAGATATACTGCCACATATAACA
1 ATTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACATATAACA
* * *
29860623 ATTTGTGGTCTAGCCACCACTGATATGCAGATATACTGCTACATA
1 ATTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACATA
29860668 CTTCCACCTT
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 77 0.99
51 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (50 bp):
ATTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACATATAACA
Found at i:29862116 original size:92 final size:92
Alignment explanation
Indices: 29861971--29862181 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 92
29861961 TTCAACAATA
* * * *
29861971 TATATTCATATACGAATCAAATTTGACGACTTATCTTTATATACAAATAAATTTCGATAATATAT
1 TATAATCATATACGAATC-AATTCGACAACTTATCTTCATATACAAATAAATTTCGATAATATAT
*
29862036 AACCATATGCAAATAAATTACAGCAAAG
65 AACCATATACAAATAAATTACAGCAAAG
* * * *
29862064 TATAATCATATACGAATCAATTCGGCAACTTATCTTCATATAGAAATCAATTTCGATAATGTATA
1 TATAATCATATACGAATCAATTCGACAACTTATCTTCATATACAAATAAATTTCGATAATATATA
* *
29862129 ACCATATACAAATAAATTTCAGCAATG
66 ACCATATACAAATAAATTACAGCAAAG
* * *
29862156 TAATACTTATATACGAATTAATTCGA
1 T-ATAATCATATACGAATCAATTCGA
29862182 AAATTTATAA
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
92 65 0.64
93 37 0.36
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (92 bp):
TATAATCATATACGAATCAATTCGACAACTTATCTTCATATACAAATAAATTTCGATAATATATA
ACCATATACAAATAAATTACAGCAAAG
Found at i:29862147 original size:31 final size:31
Alignment explanation
Indices: 29862009--29862148 Score: 108
Period size: 31 Copynumber: 4.5 Consensus size: 31
29861999 ACTTATCTTT
*
29862009 ATATACAAATAAATTTCGATAATATATAACC
1 ATATACAAATAAATTTCGATAATGTATAACC
* * *
29862040 ATATGCAAATAAATTACAGCA-AA-GTATAATC
1 ATATACAAATAAATTTC-G-ATAATGTATAACC
* * ** ***
29862071 ATATACGAATCAA-TTCGGCAACT-TATCTTC
1 ATATACAAATAAATTTCGATAA-TGTATAACC
* *
29862101 ATATAGAAATCAATTTCGATAATGTATAACC
1 ATATACAAATAAATTTCGATAATGTATAACC
29862132 ATATACAAATAAATTTC
1 ATATACAAATAAATTTC
29862149 AGCAATGTAA
Statistics
Matches: 82, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
29 3 0.04
30 19 0.23
31 56 0.68
32 3 0.04
33 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (31 bp):
ATATACAAATAAATTTCGATAATGTATAACC
Found at i:29866657 original size:20 final size:20
Alignment explanation
Indices: 29866632--29866671 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
29866622 TTAGAAACTA
29866632 AATTGAGCTCGAA-TGAGCTG
1 AATTGAGCTC-AAGTGAGCTG
29866652 AATTGAGCTCAAGTGAGCTG
1 AATTGAGCTCAAGTGAGCTG
29866672 GTTGGAGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (20 bp):
AATTGAGCTCAAGTGAGCTG
Found at i:29870305 original size:48 final size:47
Alignment explanation
Indices: 29870227--29870317 Score: 128
Period size: 48 Copynumber: 1.9 Consensus size: 47
29870217 TTATCTATGA
* * * *
29870227 TTATATGGTCGTTATTGGCAATTATGTGGTGGTTTGTCCACAATGTG
1 TTATATGGTCGTTATCGACAATAATGTGGTGGCTTGTCCACAATGTG
*
29870274 TTATGTGGTCGTTTATCGACAATAATGTGGTGGCTTGTCCACAA
1 TTATATGGTCG-TTATCGACAATAATGTGGTGGCTTGTCCACAA
29870318 ATGGTGTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 10 0.26
48 28 0.74
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (47 bp):
TTATATGGTCGTTATCGACAATAATGTGGTGGCTTGTCCACAATGTG
Found at i:29877268 original size:51 final size:50
Alignment explanation
Indices: 29877204--29877491 Score: 299
Period size: 51 Copynumber: 5.7 Consensus size: 50
29877194 TATCGATGAA
** *
29877204 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAT-TTGGT
* * * * * * *
29877255 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATTTGGT
* * * *
29877306 CACGTCTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAT-TTGGT
* * * * *
29877357 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAACTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA-TTTGGT
* * * *
29877408 CACGTGTGTAGTACTATGTAAAAGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAT-AAATTTGGT
* *
29877458 CACGTGTGTAGTACTATGTGAAGGCCATTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
29877492 TATCGAATGA
Statistics
Matches: 190, Mismatches: 43, Indels: 9
0.79 0.18 0.04
Matches are distributed among these distances:
50 35 0.18
51 153 0.81
52 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATTTGGT
Found at i:29877380 original size:102 final size:102
Alignment explanation
Indices: 29877204--29877482 Score: 416
Period size: 102 Copynumber: 2.7 Consensus size: 102
29877194 TATCGATGAA
*
29877204 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
29877269 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAACTTTGGT
* *
29877306 CACGTCTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
29877371 TAAGTGAAGGCTACTATGTGTACCGAAAAACTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAACTTTGGT
* * * *** * *
29877408 CACGTGTGTAGTACTATGTAAAAGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
29877472 TATGTGAAGGC
66 TAAGTGAAGGC
29877483 CATTACGTGT
Statistics
Matches: 160, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
101 30 0.19
102 130 0.81
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAACTTTGGT
Found at i:29882997 original size:24 final size:24
Alignment explanation
Indices: 29882970--29883022 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
29882960 GGTCATTTTG
29882970 GTGGCTAATGTAATCTTTCATGAT
1 GTGGCTAATGTAATCTTTCATGAT
29882994 GTGGCTAATGTAATCTTTCATGAT
1 GTGGCTAATGTAATCTTTCATGAT
*
29883018 TTGGC
1 GTGGC
29883023 CATAACGTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (24 bp):
GTGGCTAATGTAATCTTTCATGAT
Found at i:29892557 original size:38 final size:38
Alignment explanation
Indices: 29892514--29892597 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
29892504 ATTAAATGCA
* ** *
29892514 CCTACTATTTTTGTTACTGATCGCAT-GTTTAAATCATG
1 CCTACTATTTCTACTACTGATCGCATAATTT-AATCATG
* *
29892552 CCTACTGTTTCTACTACTGATTGCATAATTTAATCATG
1 CCTACTATTTCTACTACTGATCGCATAATTTAATCATG
29892590 CCTACTAT
1 CCTACTAT
29892598 ATTGTTATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 35 0.92
39 3 0.08
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (38 bp):
CCTACTATTTCTACTACTGATCGCATAATTTAATCATG
Found at i:29892706 original size:40 final size:40
Alignment explanation
Indices: 29892654--29892757 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 40
29892644 TTGTCCATTA
* **
29892654 TACTGGCAGCTTGTCTGCAATACTAACAATTTATTTGCAT
1 TACTGGTAGCTTGTCCACAATACTAACAATTTATTTGCAT
* ** *
29892694 TACTGGTGGCTTGTCCACAATACTGGCAGTTTATTTGCAT
1 TACTGGTAGCTTGTCCACAATACTAACAATTTATTTGCAT
* * *
29892734 TATTGGTAGCTTGCCCATAATACT
1 TACTGGTAGCTTGTCCACAATACT
29892758 GGCAACTTGA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (40 bp):
TACTGGTAGCTTGTCCACAATACTAACAATTTATTTGCAT
Found at i:29892758 original size:40 final size:40
Alignment explanation
Indices: 29892683--29892761 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
29892673 ATACTAACAA
* *
29892683 TTTATTTGCATTACTGGTGGCTTGTCCACAATACTGGCAG
1 TTTATTTGCATTACTGGTAGCTTGCCCACAATACTGGCAG
* *
29892723 TTTATTTGCATTATTGGTAGCTTGCCCATAATACTGGCA
1 TTTATTTGCATTACTGGTAGCTTGCCCACAATACTGGCA
29892762 ACTTGATTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (40 bp):
TTTATTTGCATTACTGGTAGCTTGCCCACAATACTGGCAG
Found at i:29892772 original size:40 final size:40
Alignment explanation
Indices: 29892686--29892779 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
29892676 CTAACAATTT
* * * * *
29892686 ATTTGCATTACTGGTGGCTTGTCCACAATACTGGCAGTTT
1 ATTTGCATTATTGGTAGCTTGCCCACAATACTGGCACTTG
*
29892726 ATTTGCATTATTGGTAGCTTGCCCATAATACTGGCAACTTG
1 ATTTGCATTATTGGTAGCTTGCCCACAATACTGGC-ACTTG
*
29892767 A-TTGCAATATTGG
1 ATTTGCATTATTGG
29892780 CATTTTATCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (40 bp):
ATTTGCATTATTGGTAGCTTGCCCACAATACTGGCACTTG
Found at i:29895421 original size:27 final size:27
Alignment explanation
Indices: 29895391--29895449 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
29895381 TGGCATCATA
* * *
29895391 GGTAGCCCACTGGGACACTAAACACGG
1 GGTAGCCCACCGAGACAATAAACACGG
* * *
29895418 GGTAGTCTACCGAGATAATAAACACGG
1 GGTAGCCCACCGAGACAATAAACACGG
29895445 GGTAG
1 GGTAG
29895450 ATCGCTAGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.22, G:0.31, T:0.15
Consensus pattern (27 bp):
GGTAGCCCACCGAGACAATAAACACGG
Found at i:29898561 original size:18 final size:18
Alignment explanation
Indices: 29898538--29898572 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29898528 ATCCAATTAA
*
29898538 CATAGAGATAGATGTAGT
1 CATAGAGACAGATGTAGT
*
29898556 CATAGATACAGATGTAG
1 CATAGAGACAGATGTAG
29898573 AAGTATATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (18 bp):
CATAGAGACAGATGTAGT
Found at i:29906591 original size:28 final size:28
Alignment explanation
Indices: 29906559--29906626 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
29906549 GATTTTCCAG
*
29906559 AGCTCATGTAGCTTACATTCCAACCCAC
1 AGCTCGTGTAGCTTACATTCCAACCCAC
*
29906587 AGCTCGTGTAGCTTACATTCCAACCTAC
1 AGCTCGTGTAGCTTACATTCCAACCCAC
*
29906615 AACTCGTGTAGC
1 AGCTCGTGTAGC
29906627 AGGCCCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (28 bp):
AGCTCGTGTAGCTTACATTCCAACCCAC
Found at i:29907921 original size:23 final size:22
Alignment explanation
Indices: 29907895--29907943 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
29907885 AAAAATATGT
* **
29907895 TTTTTAATCATTTTAAAGGAAAA
1 TTTTAAAT-ATTTTAAAACAAAA
*
29907918 TTTTAAATTTTTTAAAACAAAA
1 TTTTAAATATTTTAAAACAAAA
29907940 TTTT
1 TTTT
29907944 GATCTCTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTTAAATATTTTAAAACAAAA
Found at i:29907930 original size:140 final size:140
Alignment explanation
Indices: 29907725--29907998 Score: 433
Period size: 140 Copynumber: 2.0 Consensus size: 140
29907715 TAAAAAAGAG
* *
29907725 AAAGTTTAGATTTCTAAAATAAAAATTTGTTTTTTTAGTCATCTTAAAGGAAAAGTTTAAATTTT
1 AAAGTTTAGATTTCTAAAATAAAAATATGTTTTTTTAATCATCTTAAAGGAAAAGTTTAAATTTT
* * * *
29907790 TAAAATAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGTTTTGATTTTTAAGAAAAATAGT
66 TAAAACAAAATTTTGATCTCTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAGT
29907855 GATTTAAAAA
131 GATTTAAAAA
* * *
29907865 AAAGTTTAGATTTTTAAAATAAAAATATG-TTTTTTAATCATTTTAAAGGAAAATTTTAAATTTT
1 AAAGTTTAGATTTCTAAAATAAAAATATGTTTTTTTAATCATCTTAAAGGAAAAGTTTAAA-TTT
* *
29907929 TTAAAACAAAATTTTGATCTCTTTCAACTATTTCGAAATAAATTTTTGATTTTTAAGACAAATAG
65 TTAAAACAAAATTTTGATCTCTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAG
29907994 TGATT
130 TGATT
29907999 CTTTTTAAAG
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
139 28 0.23
140 94 0.77
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.44
Consensus pattern (140 bp):
AAAGTTTAGATTTCTAAAATAAAAATATGTTTTTTTAATCATCTTAAAGGAAAAGTTTAAATTTT
TAAAACAAAATTTTGATCTCTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAGT
GATTTAAAAA
Found at i:29910315 original size:16 final size:16
Alignment explanation
Indices: 29910296--29910326 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29910286 TTTTTTTCAT
29910296 TTGACTTTATTTTTTA
1 TTGACTTTATTTTTTA
*
29910312 TTGATTTTATTTTTT
1 TTGACTTTATTTTTT
29910327 TGTGTGTCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.74
Consensus pattern (16 bp):
TTGACTTTATTTTTTA
Found at i:29912475 original size:34 final size:34
Alignment explanation
Indices: 29912399--29912475 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
29912389 ATCACAATGC
* **
29912399 CAGTAATCAATAGGGCCTTTGCCCAATTTCAGTAA
1 CAGT-ATCAATAGGGCCTTAGCCCAATAACAGTAA
* *
29912434 TAGTATCAATGGGGCCTTAGCCC-ATAACAGTAA
1 CAGTATCAATAGGGCCTTAGCCCAATAACAGTAA
29912467 CAGATATCA
1 CAG-TATCA
29912476 GTCATGAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
33 10 0.29
34 22 0.63
35 3 0.09
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (34 bp):
CAGTATCAATAGGGCCTTAGCCCAATAACAGTAA
Found at i:29912958 original size:27 final size:27
Alignment explanation
Indices: 29912939--29913352 Score: 417
Period size: 27 Copynumber: 15.4 Consensus size: 27
29912929 GGGTATAACA
* *
29912939 ATCATTTTATCTTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
29912966 ATCATTTTACCTTATGAGGGTATTTCTG
1 ATCATTTTACCCTATGGGGGTATTTC-G
29912994 -TCATTTTACCCTAT-GGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
29913019 ATCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* ** *
29913046 ATTATTTTACCCTATAAGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
29913073 GTCATTTTACCCTATGAGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * * * *
29913100 GTTATTTTACCCTATAGTGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * * *
29913127 GT-AATTTACCCTATGGGGTTATTTTTG
1 ATCATTTTACCCTATGGGGGTA-TTTCG
*
29913154 -TCATTATACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
29913180 ATCATTTTAACCTATGAGGGTATTTCAG
1 ATCATTTTACCCTATGGGGGTATTTC-G
* *
29913208 A-CATTTTACCCTATGAGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
29913234 GTAATTTTACCCTATGGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* **
29913261 GTCATTTTACTATATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
29913288 GTCATTTTACCTTATGGAGGTATTTCTG
1 ATCATTTTACCCTATGGGGGTATTTC-G
* * *
29913316 -TCATTTTATCCTATGGGGTTTTTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
29913342 ATCATTTTACC
1 ATCATTTTACC
29913353 TATTTTTGGG
Statistics
Matches: 333, Mismatches: 44, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.00
26 45 0.14
27 283 0.85
28 4 0.01
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.45
Consensus pattern (27 bp):
ATCATTTTACCCTATGGGGGTATTTCG
Found at i:29913083 original size:107 final size:106
Alignment explanation
Indices: 29912940--29913352 Score: 483
Period size: 107 Copynumber: 3.8 Consensus size: 106
29912930 GGTATAACAA
* *
29912940 TCATTTTATCTTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTCTGTCATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTCTGTCATTTTACCC
*
29913005 TATGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
66 TATGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTG
* ** * * * *
29913046 ATTATTTTACCCTATAAGGGTATTTTGGTCATTTTACCCTATGAGGGTATTT-TGGTTATTTTAC
1 -TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTCT-GTCATTTTAC
* * * * *
29913110 CCTATAGTGGTATTTTGGT-AATTTACCCTATGGGGTTATTTTTG
64 CCTAT-GGGGTATTTCGATCATTTTACCCTATGGGGGTA-TTTTG
* * *
29913154 TCATTATACCCTATGGGGGTATTTCGATCATTTTAACC-TATGAGGGTATTTCAGACATTTTACC
1 TCATTTTACCCTATGGGGGTATTTCGATCATTTT-ACCTTATGAGGGTATTTCTGTCATTTTACC
* * *
29913218 CTATGAGGGTATTTTGGTAATTTTACCCTATGGGGGTATTTTGG
65 CTATG-GGGTATTTCGATCATTTTACCCTATGGGGGTATTTT-G
** * *
29913262 TCATTTTACTATATGGGGGTATTTCGGTCATTTTACCTTATG-GAGGTATTTCTGTCATTTTATC
1 TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAG-GGTATTTCTGTCATTTTACC
*
29913326 CTATGGGGTTTTTTCGATCATTTTACC
65 CTATGGGG-TATTTCGATCATTTTACC
29913353 TATTTTTGGG
Statistics
Matches: 257, Mismatches: 38, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
106 2 0.01
107 150 0.58
108 105 0.41
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (106 bp):
TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTCTGTCATTTTACCC
TATGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTG
Found at i:29913169 original size:134 final size:132
Alignment explanation
Indices: 29912940--29913352 Score: 458
Period size: 134 Copynumber: 3.1 Consensus size: 132
29912930 GGTATAACAA
* * * * * * *
29912940 TCATTTTATCTTATGGGGGTATTTCGATCATTTTACCTTATGAGGGTATTTCT-GTCATTTTACC
1 TCATTTTACCCTATGAGGGTATTTTGGTAATTTTACCCTAT-AGGGTATTT-TGGTCATTTTACC
* *
29913004 CTATGGGGTA-TTTCGATCATTTTACCCTATGGGGGTATTTCGATTATTTTACCCTATAAGGGTA
64 CTATGGGGTATTTTCG-TCATTTTACCCTATGGGGGTATTTCGATCATTTTAACCTAT-AGGGTA
29913068 TTTTGG
127 TTTTGG
* *
29913074 TCATTTTACCCTATGAGGGTATTTTGGTTATTTTACCCTATAGTGGTATTTTGGT-AATTTACCC
1 TCATTTTACCCTATGAGGGTATTTTGGTAATTTTACCCTATAG-GGTATTTTGGTCATTTTACCC
* *
29913138 TATGGGGTTATTTTTGTCATTATACCCTATGGGGGTATTTCGATCATTTTAACCTATGAGGGTAT
65 TATGGGG-TATTTTCGTCATTTTACCCTATGGGGGTATTTCGATCATTTTAACCTAT-AGGGTAT
**
29913203 TTCAG
128 TTTGG
* * **
29913208 ACATTTTACCCTATGAGGGTATTTTGGTAATTTTACCCTATGGGGGTATTTTGGTCATTTTACTA
1 TCATTTTACCCTATGAGGGTATTTTGGTAATTTTACCCTAT-AGGGTATTTTGGTCATTTTACCC
* * * * *
29913273 TATGGGGGTA-TTTCGGTCATTTTACCTTATGGAGGTATTTCTG-TCATTTTATCCTATGGGGTT
65 TAT-GGGGTATTTTC-GTCATTTTACCCTATGGGGGTATTTC-GATCATTTTAACCTATAGGGTA
*
29913336 TTTTCGA
127 TTTT-GG
29913343 TCATTTTACC
1 TCATTTTACC
29913353 TATTTTTGGG
Statistics
Matches: 237, Mismatches: 32, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
133 18 0.08
134 153 0.65
135 61 0.26
136 5 0.02
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (132 bp):
TCATTTTACCCTATGAGGGTATTTTGGTAATTTTACCCTATAGGGTATTTTGGTCATTTTACCCT
ATGGGGTATTTTCGTCATTTTACCCTATGGGGGTATTTCGATCATTTTAACCTATAGGGTATTTT
GG
Found at i:29914084 original size:24 final size:25
Alignment explanation
Indices: 29914040--29914086 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
29914030 CCCAATTCTC
*
29914040 AATATTCTCTCCTCAAATCTCTCCA
1 AATATTCTCTCATCAAATCTCTCCA
*
29914065 AATATTC-CTCATCAATTCTCTC
1 AATATTCTCTCATCAAATCTCTC
29914087 TATGACCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATTCTCTCATCAAATCTCTCCA
Found at i:29916859 original size:28 final size:28
Alignment explanation
Indices: 29916827--29916884 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
29916817 GAGAACTGCT
*
29916827 TAGCGTTAAAATACAAGGTACAAGATCA
1 TAGCGTTAAAATACAAGGTAAAAGATCA
29916855 TAGCGTTAAAATACAAGGTAAAAGATCA
1 TAGCGTTAAAATACAAGGTAAAAGATCA
29916883 TA
1 TA
29916885 CCATCGAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.22
Consensus pattern (28 bp):
TAGCGTTAAAATACAAGGTAAAAGATCA
Found at i:29921058 original size:34 final size:34
Alignment explanation
Indices: 29921015--29921082 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
29921005 AGAGAAGAAA
29921015 ACCAGTTAGCAGATGCATTAGCTACTCTAGCCAC
1 ACCAGTTAGCAGATGCATTAGCTACTCTAGCCAC
*
29921049 ACCAGTTAGCAGGTGCATTAGCTACTCTAGCCAC
1 ACCAGTTAGCAGATGCATTAGCTACTCTAGCCAC
29921083 CATGTTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (34 bp):
ACCAGTTAGCAGATGCATTAGCTACTCTAGCCAC
Found at i:29922906 original size:42 final size:42
Alignment explanation
Indices: 29922838--29923352 Score: 663
Period size: 42 Copynumber: 12.3 Consensus size: 42
29922828 AATGAAATTA
* * *
29922838 TTCATTCCATTTAGAGGCCCAGGTGTGGATGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
29922880 TTGATTGCATTTAAAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
29922922 TTCATTGCATTTAAAGGCCTAAGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
29922964 TTTATTACATTTAAAGGACCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
29923006 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTTCTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
29923048 TTCGTTGAATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTAT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACT-T
* *
29923091 TT-ATTGCATTTAAAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
29923132 TTCCTTGCATTTAGAGGCCCAAGTGTGGAGGCCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
29923174 TTCATTGCATTTAGAGGCCTAGGTGTGAAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * **
29923216 TTTATTGTATTTAGAGGCTCAAGTGTAAAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
29923258 TTCATTGCATCTAGAGGCCTAGGTGTGGAGGTTCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
29923300 TTCATTGCATTTAAAGGCCCAGGTGTGAAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
29923342 TTCATTGCATT
1 TTCATTGCATT
29923353 GTATATTAAG
Statistics
Matches: 408, Mismatches: 63, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
41 3 0.01
42 402 0.99
43 3 0.01
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:29924314 original size:141 final size:141
Alignment explanation
Indices: 29924142--29924406 Score: 460
Period size: 141 Copynumber: 1.9 Consensus size: 141
29924132 AAATAAAGAT
*
29924142 AAAGTTTAGGTTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAATTTTAAA-TTTT
1 AAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAATTTTAAATTTTT
* * *
29924206 TAAAATAAAGTTTTAATCTTTTTCAACTATTTCGAAAATAAAGTTTTGATTTTTAAGAAAAAAAG
66 TAAAACAAAATTTTAATCTTTTTCAACTATTTCG-AAATAAAATTTTGATTTTTAAGAAAAAAAG
29924271 TGATTTTAAAAA
130 TGATTTTAAAAA
* *
29924283 AAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATTTTAAAGTAAAATTTTAAATTTTT
1 AAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAATTTTAAATTTTT
29924348 TAAAACAAAATTTTAATCTTTTTCAACTATTTCGAAATAAAATTTTGATTTTTAAGAAA
66 TAAAACAAAATTTTAATCTTTTTCAACTATTTCGAAATAAAATTTTGATTTTTAAGAAA
29924407 GTAGTTTTTT
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
141 81 0.69
142 36 0.31
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (141 bp):
AAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAATTTTAAATTTTT
TAAAACAAAATTTTAATCTTTTTCAACTATTTCGAAATAAAATTTTGATTTTTAAGAAAAAAAGT
GATTTTAAAAA
Found at i:29924369 original size:22 final size:22
Alignment explanation
Indices: 29924314--29924370 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
29924304 AAAATATGTT
* * **
29924314 TTTTAGTCATTTTAAAGTAAAA
1 TTTTAATCTTTTTAAAACAAAA
29924336 TTTTAAAT-TTTTTAAAACAAAA
1 TTTT-AATCTTTTTAAAACAAAA
29924358 TTTTAATCTTTTT
1 TTTTAATCTTTTT
29924371 CAACTATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.10
22 24 0.83
23 2 0.07
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTTAATCTTTTTAAAACAAAA
Found at i:29924787 original size:21 final size:21
Alignment explanation
Indices: 29924763--29924804 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
29924753 TTTATTCACA
29924763 CTTATATAATTTTTATTTATT
1 CTTATATAATTTTTATTTATT
* *
29924784 CTTATTTTATTTTTATTTATT
1 CTTATATAATTTTTATTTATT
29924805 TTCATGTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (21 bp):
CTTATATAATTTTTATTTATT
Found at i:29924805 original size:10 final size:10
Alignment explanation
Indices: 29924771--29924806 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
29924761 CACTTATATA
29924771 ATTTTTATTT
1 ATTTTTATTT
*
29924781 ATTCTTATTTT
1 ATTTTTA-TTT
29924792 ATTTTTATTT
1 ATTTTTATTT
29924802 ATTTT
1 ATTTT
29924807 CATGTCCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:29931553 original size:21 final size:19
Alignment explanation
Indices: 29931529--29931572 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
29931519 AAAACAAGTT
*
29931529 AAAATTCAGATCAAAAGAAA
1 AAAAATCAGATCAAAA-AAA
*
29931549 AAAAATCAGATTAAAAAAA
1 AAAAATCAGATCAAAAAAA
29931568 GAAAA
1 -AAAA
29931573 CTAAGGTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (19 bp):
AAAAATCAGATCAAAAAAA
Found at i:29934360 original size:25 final size:27
Alignment explanation
Indices: 29934309--29934361 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
29934299 AGTCGAAATA
*
29934309 GATTTTTGACATCTATATATATGTTTG
1 GATTTTTGACATCTATATATATATTTG
29934336 GATTTTTG-CA-CTATAT-TATTATTTG
1 GATTTTTGACATCTATATATA-TATTTG
29934361 G
1 G
29934362 GATGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 12 0.50
26 2 0.08
27 8 0.33
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.53
Consensus pattern (27 bp):
GATTTTTGACATCTATATATATATTTG
Found at i:29934364 original size:26 final size:27
Alignment explanation
Indices: 29934309--29934364 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
29934299 AGTCGAAATA
*
29934309 GATTTTTGACATCTATATATATGTTTG
1 GATTTTTGACATCTATATATATGTTGG
29934336 GATTTTTG-CA-CTATATTATTAT-TTGG
1 GATTTTTGACATCTATA-TA-TATGTTGG
29934362 GAT
1 GAT
29934365 GATTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 5 0.19
26 10 0.38
27 11 0.42
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (27 bp):
GATTTTTGACATCTATATATATGTTGG
Found at i:29941916 original size:26 final size:27
Alignment explanation
Indices: 29941878--29941935 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
29941868 AATATTAAAT
* *
29941878 TATTTATATAATTT-TATTATATATTA
1 TATTTTTAAAATTTGTATTATATATTA
* *
29941904 TATTTTTAAAATTTGTATTTTCTATTA
1 TATTTTTAAAATTTGTATTATATATTA
29941931 T-TTTT
1 TATTTT
29941936 AATGATGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (27 bp):
TATTTTTAAAATTTGTATTATATATTA
Found at i:29950433 original size:55 final size:55
Alignment explanation
Indices: 29950367--29950473 Score: 187
Period size: 55 Copynumber: 1.9 Consensus size: 55
29950357 GTAACAAACA
*
29950367 GATTCTTAATGGTGTTGAAAAGTTCAGTTTTAGATCAGATTTATTGAGTTGAGTT
1 GATTCTTAATGGTGTTGAAAAATTCAGTTTTAGATCAGATTTATTGAGTTGAGTT
* *
29950422 GATTCTTAATGGTGTTGAAAAATTCGGTTTTCGATCAGATTTATTGAGTTGA
1 GATTCTTAATGGTGTTGAAAAATTCAGTTTTAGATCAGATTTATTGAGTTGA
29950474 ATTAGTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (55 bp):
GATTCTTAATGGTGTTGAAAAATTCAGTTTTAGATCAGATTTATTGAGTTGAGTT
Found at i:29960731 original size:29 final size:29
Alignment explanation
Indices: 29960674--29960735 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
29960664 TTTAAATAAA
*
29960674 TATGGACTTTTCTTTATGATTTGGATTTT
1 TATGGACTTTTATTTATGATTTGGATTTT
*
29960703 TATGGAC-TTTATTTCT-ATTTGAGACTTTT
1 TATGGACTTTTATTTATGATTTG-GA-TTTT
29960732 TATG
1 TATG
29960736 TTATATTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 9 0.31
29 15 0.52
ACGTcount: A:0.19, C:0.08, G:0.16, T:0.56
Consensus pattern (29 bp):
TATGGACTTTTATTTATGATTTGGATTTT
Found at i:29962139 original size:27 final size:27
Alignment explanation
Indices: 29961980--29962145 Score: 126
Period size: 27 Copynumber: 6.2 Consensus size: 27
29961970 GGTAAAATGG
* * * *
29961980 TAATTTTACCC-CCAGGGGTATTTTGG
1 TAATTTTACCCTTCGGGGGTATTTCGA
*
29962006 TCATTTTACCCTTCGGGGGTATTTC-A
1 TAATTTTACCCTTCGGGGGTATTTCGA
* * * *
29962032 TTCATTTTACCCTTCGAGGGTATTACGG
1 -TAATTTTACCCTTCGGGGGTATTTCGA
* * *
29962060 TAAATTTA-CCTGTCGAGGTGT-TTT-GG
1 TAATTTTACCCT-TCG-GGGGTATTTCGA
* * *
29962086 TAATTCTATCCTTCGAGGGTATTTCGA
1 TAATTTTACCCTTCGGGGGTATTTCGA
*
29962113 TAATTTTACCCTTAGGGGGTATTTCGA
1 TAATTTTACCCTTCGGGGGTATTTCGA
29962140 TAATTT
1 TAATTT
29962146 GCCTACGAAT
Statistics
Matches: 110, Mismatches: 22, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
25 3 0.03
26 27 0.25
27 77 0.70
28 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
TAATTTTACCCTTCGGGGGTATTTCGA
Found at i:29965984 original size:24 final size:24
Alignment explanation
Indices: 29965957--29966013 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
29965947 GTGGGCATGT
**
29965957 CACTCAATAGTGTTGTGGTC-AAGC
1 CACTCAATAACGTTGTGG-CAAAGC
29965981 CACTCAATAACGTTGTGGCAAAGC
1 CACTCAATAACGTTGTGGCAAAGC
*
29966005 CACTTAATA
1 CACTCAATA
29966014 TTTTAGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (24 bp):
CACTCAATAACGTTGTGGCAAAGC
Found at i:29974455 original size:22 final size:22
Alignment explanation
Indices: 29974430--29974478 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
29974420 AATGATCATT
29974430 GTGGTAGTGCGGAAG-TGGTGAG
1 GTGGTAGTGC-GAAGATGGTGAG
* *
29974452 GTGGTGGTGCGACGATGGTGAG
1 GTGGTAGTGCGAAGATGGTGAG
29974474 GTGGT
1 GTGGT
29974479 GGTGTGGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.14, C:0.06, G:0.55, T:0.24
Consensus pattern (22 bp):
GTGGTAGTGCGAAGATGGTGAG
Found at i:29986889 original size:43 final size:43
Alignment explanation
Indices: 29986823--29986908 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
29986813 TTATCCTATA
* *
29986823 AAAAAATAATTTATAAAAAGGAGAAGATAATA-TTGGGTTGTTG
1 AAAAAATAATTTATAAAAAGGAGAAAATAA-ACATGGGTTGTTG
*
29986866 AAAACATAATTTA-AAAAGAGGAGAAAATAAACATGGGTTGTTG
1 AAAAAATAATTTATAAAA-AGGAGAAAATAAACATGGGTTGTTG
29986909 GATTTACCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 5 0.13
43 33 0.87
ACGTcount: A:0.50, C:0.02, G:0.21, T:0.27
Consensus pattern (43 bp):
AAAAAATAATTTATAAAAAGGAGAAAATAAACATGGGTTGTTG
Found at i:29989428 original size:27 final size:27
Alignment explanation
Indices: 29989390--29989631 Score: 232
Period size: 27 Copynumber: 9.3 Consensus size: 27
29989380 ATTCATGGGC
**
29989390 AAATGACTGAAATACCCTCGAAGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
*
29989417 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
29989444 AAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
*
29989471 AATTGACCAAAATACCCTCGAAGGGTGA
1 AAATGACCAAAATACCCTCGAAGGGT-A
*
29989499 AAA-GGCCAAAATACCCTC-----G--
1 AAATGACCAAAATACCCTCGAAGGGTA
* * * *
29989518 -AATGATCGAAATACCCCCGAATGGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
* * * *
29989544 AATTGATCGAAATACCCCCGAAGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
* * * *
29989571 AAATGATCGAAATACCCCCGAAGCGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
* * *
29989598 AAATGATCGAAATACCCTTGAAGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTA
29989625 AAATGAC
1 AAATGAC
29989632 TGTTATACCC
Statistics
Matches: 188, Mismatches: 17, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
18 2 0.01
19 11 0.06
22 1 0.01
24 1 0.01
27 170 0.90
28 3 0.02
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (27 bp):
AAATGACCAAAATACCCTCGAAGGGTA
Found at i:29989457 original size:54 final size:54
Alignment explanation
Indices: 29989390--29989631 Score: 259
Period size: 54 Copynumber: 4.6 Consensus size: 54
29989380 ATTCATGGGC
* *
29989390 AAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTA
* * * *
29989444 AAATGACCAAAATACCCTCGAAGGGTAAATTGACCAAAATACCCTCGAAGGGTGA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGT-A
* * * *
29989499 AAA-GGCCAAAATACCCTC-----G---AATGATCGAAATACCCCCGAATGGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTA
* * * * *
29989544 AATTGATCGAAATACCCCCGAAGGGTAAAATGATCGAAATACCCCCGAAGCGTA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTA
* *
29989598 AAATGATCGAAATACCCTTGAAGGGTAAAATGAC
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGAC
29989632 TGTTATACCC
Statistics
Matches: 157, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
45 3 0.02
46 31 0.20
49 1 0.01
51 1 0.01
54 117 0.75
55 4 0.03
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (54 bp):
AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTA
Found at i:29989584 original size:73 final size:73
Alignment explanation
Indices: 29989453--29989592 Score: 183
Period size: 73 Copynumber: 1.9 Consensus size: 73
29989443 AAAATGACCA
* * * *
29989453 AAATACCCTCGAAGGGTAAATTGACCAAAATACCCTCGAAGGGTGAAAAGGCCAAAATACCCTCG
1 AAATACCCCCGAAGGGTAAATTGACCAAAATACCCCCGAAGGGTGAAAAGACCAAAATACCCCCG
29989518 AATGATCG
66 AATGATCG
* * * * *
29989526 AAATACCCCCGAATGGTAAATTGATCGAAATACCCCCGAAGGGT-AAAATGATCGAAATACCCCC
1 AAATACCCCCGAAGGGTAAATTGACCAAAATACCCCCGAAGGGTGAAAA-GACCAAAATACCCCC
29989590 GAA
65 GAA
29989593 GCGTAAAATG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 4 0.07
73 53 0.93
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.16
Consensus pattern (73 bp):
AAATACCCCCGAAGGGTAAATTGACCAAAATACCCCCGAAGGGTGAAAAGACCAAAATACCCCCG
AATGATCG
Found at i:29989611 original size:100 final size:100
Alignment explanation
Indices: 29989418--29989615 Score: 245
Period size: 100 Copynumber: 2.0 Consensus size: 100
29989408 CGAAGGGTAA
* * *
29989418 AATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTCGAAGGGTAAATTGACCAAAA
1 AATGACCGAAATACCCCCGAAGGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGACCAAAA
* * *
29989483 TACCCTCGAAGGGTGAAAAGGCCAAAATACCCTCG
66 TACCCCCGAAGCGTGAAAAGACCAAAATACCCTCG
* * * * * * *
29989518 AATGATCGAAATACCCCCGAATGGTAAATTGATCGAAATACCCCCGAAGGGTAAAATGATCGAAA
1 AATGACCGAAATACCCCCGAAGGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGACCAAAA
* *
29989583 TACCCCCGAAGCGT-AAAATGATCGAAATACCCT
66 TACCCCCGAAGCGTGAAAA-GACCAAAATACCCT
29989616 TGAAGGGTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 4 0.05
100 78 0.95
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (100 bp):
AATGACCGAAATACCCCCGAAGGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGACCAAAA
TACCCCCGAAGCGTGAAAAGACCAAAATACCCTCG
Found at i:29989621 original size:127 final size:126
Alignment explanation
Indices: 29989398--29989627 Score: 334
Period size: 127 Copynumber: 1.8 Consensus size: 126
29989388 GCAAATGACT
* * *
29989398 GAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTC
1 GAAATACCCCCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCAAAATACCCCC
* *
29989463 GAAGGGTAAATTGACCAAAATACCCTCGAAGGGTGAAAAGGCCAAAATACCCTCGAATGATC
66 GAAGCGTAAAATGACCAAAATACCCTCGAAGGGT-AAAAGGCCAAAATACCCTCGAATGATC
* * * * *
29989525 GAAATACCCCCGAATGGTAAATTGATCGAAATACCCCCGAAGGGTAAAATGATCGAAATACCCCC
1 GAAATACCCCCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCAAAATACCCCC
* * *
29989590 GAAGCGTAAAATGATCGAAATACCCTTGAAGGGTAAAA
66 GAAGCGTAAAATGACCAAAATACCCTCGAAGGGTAAAA
29989628 TGACTGTTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
126 4 0.04
127 86 0.96
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (126 bp):
GAAATACCCCCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACCAAAATACCCCC
GAAGCGTAAAATGACCAAAATACCCTCGAAGGGTAAAAGGCCAAAATACCCTCGAATGATC
Found at i:29989841 original size:26 final size:26
Alignment explanation
Indices: 29989808--29989858 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
29989798 GCCACATATA
*
29989808 CTATTACTGGTAGCT-TCGCTGCGATT
1 CTATTACTGGCAGCTCT-GCTGCGATT
29989834 CTATTACTGGCAGCTCTGCTGCGAT
1 CTATTACTGGCAGCTCTGCTGCGAT
29989859 ATTGGTGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (26 bp):
CTATTACTGGCAGCTCTGCTGCGATT
Found at i:29996140 original size:60 final size:60
Alignment explanation
Indices: 29996065--29996293 Score: 257
Period size: 60 Copynumber: 3.8 Consensus size: 60
29996055 TCAAAGATTT
* *
29996065 GCCAGAAAGGCTTTCCTTTCTAGAGATTTTCCACAATGGCATCCTTTTCATTCAGTACTC
1 GCCATAAAGGCTTTCCTTTCTAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTC
* * * * * * *
29996125 GCCATAAAGGCTTTCCTTT-TGAGAGATTTTCCATAAATGCATTCTTCTCATACATTAATC
1 GCCATAAAGGCTTTCCTTTCT-AGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTC
* * * * * *
29996185 GCC-TCAAAGGCTTTCTTTTCCATAGGTTTGCCACAAAGGTATCCTTTTCATTCAGTACTC
1 GCCAT-AAAGGCTTTCCTTTCTAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTC
* *
29996245 GCCA-AAAGGTTTTCCTTTTTAGAGATTTTCCACAAAGGCATCCTATTTC
1 GCCATAAAGGCTTTCCTTTCTAGAGATTTTCCACAAAGGCATCCT-TTTC
29996294 TATCATGTTT
Statistics
Matches: 134, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
59 34 0.25
60 100 0.75
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (60 bp):
GCCATAAAGGCTTTCCTTTCTAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTC
Found at i:29996468 original size:49 final size:50
Alignment explanation
Indices: 29996405--29996501 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
29996395 TTAGTTCTTC
** * * * *
29996405 CCATATGATGCCATAACCCACTAG-TTTGGTCTTATATGATATGGTGTTT
1 CCATATGACACCATAACCCACCAGCTATGGTCTTACACGATATGGTGTTT
* *
29996454 CCATATGACACCATAGCTCACCAGCTATGGTCTTACACGATATGGTGT
1 CCATATGACACCATAACCCACCAGCTATGGTCTTACACGATATGGTGT
29996502 CGTGGACTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 19 0.49
50 20 0.51
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (50 bp):
CCATATGACACCATAACCCACCAGCTATGGTCTTACACGATATGGTGTTT
Found at i:29998009 original size:29 final size:29
Alignment explanation
Indices: 29997975--29998047 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
29997965 TTAGATATTA
* *
29997975 TTAAATATGTCCTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
29998004 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
29998033 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
29998048 ACTAATACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:29999241 original size:13 final size:14
Alignment explanation
Indices: 29999223--29999251 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
29999213 GTGAGTTTGT
29999223 AAAAAAAATT-GAA
1 AAAAAAAATTCGAA
29999236 AAAAAAAATTCGAA
1 AAAAAAAATTCGAA
29999250 AA
1 AA
29999252 TTCAAGAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAAAAATTCGAA
Found at i:30001826 original size:20 final size:20
Alignment explanation
Indices: 30001800--30001883 Score: 105
Period size: 20 Copynumber: 4.1 Consensus size: 20
30001790 CCATGTTCAG
30001800 GCTATGGCTCAACATAGGCT
1 GCTATGGCTCAACATAGGCT
* *
30001820 ACTATGGCTCAACACAGGGGCT
1 GCTATGGCTCAACATA--GGCT
*
30001842 GCTATGGCTCAACATAGGCC
1 GCTATGGCTCAACATAGGCT
* *
30001862 GCCACGGCTCAACATAGGCT
1 GCTATGGCTCAACATAGGCT
30001882 GC
1 GC
30001884 CACAGACTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
20 36 0.67
22 18 0.33
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.19
Consensus pattern (20 bp):
GCTATGGCTCAACATAGGCT
Found at i:30004194 original size:27 final size:27
Alignment explanation
Indices: 30004164--30004262 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
30004154 TACCGTTCGG
*
30004164 GGGTATTTCAGTAATTTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
30004191 GGGTACTTT-TGTAATTTCACGAATCGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
* * * *
30004218 GGGTACTTCGGTAATTTTACAAGTTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
30004245 GGGTATTTTAGTAATTTT
1 GGGTATTTCAGTAATTTT
30004263 GTAAACCAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 2 0.04
27 52 0.91
28 3 0.05
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:30006651 original size:27 final size:27
Alignment explanation
Indices: 30006621--30006842 Score: 252
Period size: 27 Copynumber: 8.2 Consensus size: 27
30006611 TAACAGTTAC
30006621 TTTACCCTATGGGGGTATTTTGATCAT
1 TTTACCCTATGGGGGTATTTTGATCAT
*
30006648 TTTACCCTATGGGGGTATTTCGATCAT
1 TTTACCCTATGGGGGTATTTTGATCAT
* *
30006675 TTTACCCTATGGGGGTA-TTTCAGTGAT
1 TTTACCCTATGGGGGTATTTTGA-TCAT
* * *
30006702 TCTACCTTATGGGGGTATTTTGGTCAT
1 TTTACCCTATGGGGGTATTTTGATCAT
* * *
30006729 TTTACCCTATAGGAGTA-TTTCAGTCAT
1 TTTACCCTATGGGGGTATTTTGA-TCAT
* **
30006756 TTTACCCTATGGAGGTATTTCAATCAT
1 TTTACCCTATGGGGGTATTTTGATCAT
* *
30006783 TCTACCCTATGGGGGTA-TTTCAGTCAT
1 TTTACCCTATGGGGGTATTTTGA-TCAT
* *
30006810 TTTACCCTATGGAGGTATTTCGATCAT
1 TTTACCCTATGGGGGTATTTTGATCAT
30006837 TTTACC
1 TTTACC
30006843 TATTTTGGGG
Statistics
Matches: 161, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 9 0.06
27 143 0.89
28 9 0.06
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTACCCTATGGGGGTATTTTGATCAT
Found at i:30006679 original size:54 final size:54
Alignment explanation
Indices: 30006621--30006842 Score: 320
Period size: 54 Copynumber: 4.1 Consensus size: 54
30006611 TAACAGTTAC
* *
30006621 TTTACCCTATGGGGGTATTT-TGATCATTTTACCCTATGGGGGTATTTCGATCAT
1 TTTACCCTATGGGGGTATTTCAG-TCATTTTACCCTATGGAGGTATTTCGATCAT
* * * * * *
30006675 TTTACCCTATGGGGGTATTTCAGTGATTCTACCTTATGGGGGTATTTTGGTCAT
1 TTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGAGGTATTTCGATCAT
* * *
30006729 TTTACCCTATAGGAGTATTTCAGTCATTTTACCCTATGGAGGTATTTCAATCAT
1 TTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGAGGTATTTCGATCAT
*
30006783 TCTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGAGGTATTTCGATCAT
1 TTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGAGGTATTTCGATCAT
30006837 TTTACC
1 TTTACC
30006843 TATTTTGGGG
Statistics
Matches: 147, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 146 0.99
55 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (54 bp):
TTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGAGGTATTTCGATCAT
Found at i:30006729 original size:81 final size:81
Alignment explanation
Indices: 30006623--30006842 Score: 334
Period size: 81 Copynumber: 2.7 Consensus size: 81
30006613 ACAGTTACTT
* *
30006623 TACCCTATGGGGGTATTTTGATCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGG
1 TACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGA
* *
30006688 GGTATTTCAGTGATTC
66 GGTATTTCAATCATTC
* * *
30006704 TACCTTATGGGGGTATTTTGGTCATTTTACCCTATAGGAGTATTTC-AGTCATTTTACCCTATGG
1 TACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGG
30006768 AGGTATTTCAATCATTC
65 AGGTATTTCAATCATTC
** *
30006785 TACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACC
1 TACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACC
30006843 TATTTTGGGG
Statistics
Matches: 124, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.01
81 122 0.98
82 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (81 bp):
TACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGA
GGTATTTCAATCATTC
Found at i:30011276 original size:50 final size:50
Alignment explanation
Indices: 30011193--30011385 Score: 242
Period size: 50 Copynumber: 3.8 Consensus size: 50
30011183 ATTTGGGTAA
* * *
30011193 AGAGGTCCCATGTAAGACCATGTCTGGGGCATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* **
30011243 AGAGGTCCCATGTAAGACCATTTCTAAGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
30011293 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
30011343 AGAACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30011386 TGTTATTATC
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 88 0.73
51 33 0.27
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:30015211 original size:40 final size:40
Alignment explanation
Indices: 30015127--30015278 Score: 114
Period size: 40 Copynumber: 3.8 Consensus size: 40
30015117 TTGAATGCTG
* * *
30015127 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGACTAAATCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
30015166 ATCCGGACTAACAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGACTAA-ATCCCGAAGGCATTTGTGCGAGATACTAAT
** * *
30015207 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGACTAAATCCCGAAGGCATTTGTGCGAGATACTAAT
** * *
30015247 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TCCGGACTAAATCCCGAAGGCATTTGTGCGAG
30015279 TTTTAAAATC
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 79 0.86
41 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGACTAAATCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:30015291 original size:40 final size:39
Alignment explanation
Indices: 30015180--30015310 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 39
30015170 GGACTAACAT
*
30015180 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTT-TTAATTCCGGGTTAAGTC
* **
30015220 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAG-TTTTAATTCCGGGTTAAGTC
* *
30015260 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTTT-AATTCCGGGTTAAGTC
30015300 CCGAAGGCATT
1 CCGAAGGCATT
30015311 GAATGAGTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.03
40 77 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTTTAATTCCGGGTTAAGTC
Found at i:30015331 original size:39 final size:39
Alignment explanation
Indices: 30015195--30015357 Score: 141
Period size: 40 Copynumber: 4.1 Consensus size: 39
30015185 GGTATTTGTG
* * * **
30015195 CGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGG-CATTGAA
* * **
30015235 CGAGATACT-AATTCCGGGTTAAGTCCCGAAGGCATTCGTG
1 CGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGGCATT-GAA
*
30015275 CGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
* * * *
30015314 TGAGTTAATATAA-CCGGGCTATGTCCCGAAGGCACTTGAA
1 CGAGTT-ATAAAATCCGGGTTAAGTCCCGAAGGCA-TTGAA
30015354 CGAG
1 CGAG
30015358 GAGCTAAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
39 29 0.28
40 75 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
Found at i:30022499 original size:13 final size:14
Alignment explanation
Indices: 30022477--30022505 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30022467 ATAATCTCTG
30022477 TTCATAATCATAAA
1 TTCATAATCATAAA
30022491 TTCAT-ATCATAAA
1 TTCATAATCATAAA
30022504 TT
1 TT
30022506 TATACACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (14 bp):
TTCATAATCATAAA
Found at i:30026279 original size:45 final size:45
Alignment explanation
Indices: 30026210--30026298 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
30026200 AATAGATACT
* * *
30026210 CGGTGGATTCAGCACATAGAAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGAAACCACCTTACTAATCAATGATGTC
*
30026255 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAACACATAGAAACCACCTTACTAATCAATGATGT
30026299 TTGGTTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGAAACCACCTTACTAATCAATGATGTC
Found at i:30027964 original size:50 final size:47
Alignment explanation
Indices: 30027849--30027989 Score: 142
Period size: 50 Copynumber: 2.9 Consensus size: 47
30027839 GCATACTCTA
* * *
30027849 ACACGTAGTAGCCTGTACATAGTACTACACGTGATCGAAACTATC-TGGT
1 ACACGTAGTAGCCTGCACATAGTACTACACATG-T-G-ACCTATCATGGT
* * *
30027898 ACGCATAGTAGTCTGCACATAGTACTACACATGTGACCTATCATTCCGGT
1 ACACGTAGTAGCCTGCACATAGTACTACACATGTGACCTATCA-T--GGT
* *
30027948 ACACGTAGTAGCCTGCACATAGTACTACAAACGTGACC-ATCA
1 ACACGTAGTAGCCTGCACATAGTACTACACATGTGACCTATCA
30027990 CTTTCAGTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
46 6 0.08
47 1 0.01
48 2 0.03
49 32 0.42
50 36 0.47
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (47 bp):
ACACGTAGTAGCCTGCACATAGTACTACACATGTGACCTATCATGGT
Found at i:30031549 original size:50 final size:50
Alignment explanation
Indices: 30031435--30031608 Score: 213
Period size: 50 Copynumber: 3.5 Consensus size: 50
30031425 GATAATAACA
* * ** *
30031435 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * **
30031486 TGCCCATTCCATGTCCCAGACATGGTGTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
30031536 TACCAATGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
30031586 TGCCAACGCCATGTCCCAGACAT
1 TGCCAATGCCATGTCCCAGACAT
30031609 CAATTTAGCC
Statistics
Matches: 102, Mismatches: 21, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 72 0.71
51 30 0.29
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:30041529 original size:50 final size:50
Alignment explanation
Indices: 30041416--30041706 Score: 384
Period size: 50 Copynumber: 5.8 Consensus size: 50
30041406 TAATAACATT
* ** *
30041416 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATTTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTG
*** * * **
30041467 CCCTTGCAATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
*
30041517 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
30041567 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * * * * ** *
30041617 CTAATGTCATGTCCCAGACATGTTCGTACATGCAACCTCTCATCTGGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
*
30041667 CCAACGGCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30041707 TTACCCAAAT
Statistics
Matches: 206, Mismatches: 34, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
50 178 0.86
51 28 0.14
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:30047002 original size:27 final size:27
Alignment explanation
Indices: 30046915--30047083 Score: 204
Period size: 27 Copynumber: 6.3 Consensus size: 27
30046905 GTTGTAATAC
30046915 TACTGAAATA-CCTCGAAGGGTAAAAT
1 TACTGAAATACCCTCGAAGGGTAAAAT
*
30046941 TATCT-AAATACCCTCG-AGGATAAAAT
1 TA-CTGAAATACCCTCGAAGGGTAAAAT
* *
30046967 TACCGAAATACCCTCGAAGTGTAAAAT
1 TACTGAAATACCCTCGAAGGGTAAAAT
* *
30046994 TACTAAAATACCCTCGAAGGATAAAAT
1 TACTGAAATACCCTCGAAGGGTAAAAT
*
30047021 TATTGGAAA-ACCCTCGAAGGGTAAAAT
1 TACT-GAAATACCCTCGAAGGGTAAAAT
* *
30047048 TA-TCAGAATACTCTCGAAGGGTAAAAT
1 TACTGA-AATACCCTCGAAGGGTAAAAT
30047075 TACTGAAAT
1 TACTGAAAT
30047084 GCCCCTATAG
Statistics
Matches: 121, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
25 2 0.02
26 32 0.26
27 82 0.68
28 5 0.04
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (27 bp):
TACTGAAATACCCTCGAAGGGTAAAAT
Found at i:30047099 original size:27 final size:27
Alignment explanation
Indices: 30047065--30047401 Score: 413
Period size: 27 Copynumber: 12.5 Consensus size: 27
30047055 ATACTCTCGA
* * * *
30047065 AGGGTAAAATTACTGAAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * **
30047092 AGGCTAAAGTGACTATAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * * *
30047119 AGGGTAAAATGGCCGCAACGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
30047146 AGGGTAAAGTGATCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
30047173 AGGGTAAAATGGCCGTAATGCCCCTGC
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
30047200 AGGGTAAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
30047227 AAGGTAAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
30047254 AGGGTAAAATGACCGTAATGCCCTTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
30047281 AAGGTAAAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
30047308 AGGATAAAATGACTGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* **
30047335 AGGGTAAAATGAACGTAATGCCCCAAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
30047362 AGGGTAAAATGATCGTAATGCTCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
30047389 AGGGTAAAATGAC
1 AGGGTAAAATGAC
30047402 TATTTTACCC
Statistics
Matches: 262, Mismatches: 48, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 262 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTGT
Found at i:30047519 original size:24 final size:24
Alignment explanation
Indices: 30047472--30047551 Score: 108
Period size: 24 Copynumber: 3.4 Consensus size: 24
30047462 GAAATGTAAG
*
30047472 TGACTGATTTG-TTGTGATTGAAA
1 TGACTGATTTGTTTGTGATTTAAA
30047495 TGACTGATTTGTTTGTGATTTAAA
1 TGACTGATTTGTTTGTGATTTAAA
* * **
30047519 TGACTGATTTGTCTATGATTTGTA
1 TGACTGATTTGTTTGTGATTTAAA
30047543 TGACTGATT
1 TGACTGATT
30047552 CCGTGCATGG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 11 0.22
24 40 0.78
ACGTcount: A:0.24, C:0.06, G:0.23, T:0.47
Consensus pattern (24 bp):
TGACTGATTTGTTTGTGATTTAAA
Found at i:30047654 original size:27 final size:27
Alignment explanation
Indices: 30047616--30047680 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
30047606 ATGGAGGAAG
30047616 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
30047641 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
*
30047669 TACTATTACTGG
1 TACTGTTACTGG
30047681 CAGCTTTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 27 0.77
28 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:30047686 original size:27 final size:27
Alignment explanation
Indices: 30047634--30047686 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
30047624 TGGTGGCTCT
* **
30047634 GCCACAATCACTGTTACTGGTGGCTTG
1 GCCACAATCACTATTACTGGCAGCTTG
30047661 GCCACATAT-ACTATTACTGGCAGCTT
1 GCCACA-ATCACTATTACTGGCAGCTT
30047687 TGCTGCGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTATTACTGGCAGCTTG
Found at i:30047706 original size:26 final size:26
Alignment explanation
Indices: 30047668--30047732 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
30047658 TTGGCCACAT
* *
30047668 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTGCTGGCAGCTTTGCTGCA
*
30047694 ATACTGTTGCTGGCAGCTTTGCTGCA
1 ATACTATTGCTGGCAGCTTTGCTGCA
*
30047720 ATGCTATTGCTGG
1 ATACTATTGCTGG
30047733 ATTTGTACCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (26 bp):
ATACTATTGCTGGCAGCTTTGCTGCA
Found at i:30047777 original size:32 final size:32
Alignment explanation
Indices: 30047736--30047913 Score: 207
Period size: 32 Copynumber: 5.6 Consensus size: 32
30047726 TTGCTGGATT
*
30047736 TGTACCGATCATATTACCATTACTGATGGTTG
1 TGTACCGATCATATTACTATTACTGATGGTTG
* *
30047768 TGTACCGATCATATTACCATTACTGATGGCTG
1 TGTACCGATCATATTACTATTACTGATGGTTG
* * *
30047800 TGTGCCGATCATATTACTACTACTAATGGCTT-
1 TGTACCGATCATATTACTATTACTGATGG-TTG
* * *
30047832 TGTGCCGATCATACTACTATTACTGATGGCTG
1 TGTACCGATCATATTACTATTACTGATGGTTG
* *
30047864 TGTACCGGTCATATTACTACTACTGATGGCTT-
1 TGTACCGATCATATTACTATTACTGATGG-TTG
* *
30047896 TGTGCCAATCATATTACT
1 TGTACCGATCATATTACT
30047914 GTACTTATGG
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
31 1 0.01
32 122 0.98
33 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTACCGATCATATTACTATTACTGATGGTTG
Found at i:30047841 original size:64 final size:64
Alignment explanation
Indices: 30047736--30047912 Score: 257
Period size: 64 Copynumber: 2.8 Consensus size: 64
30047726 TTGCTGGATT
* * *
30047736 TGTACCGATCATATTACCATTACTGATGG-TTGTGTACCGATCATATTACCATTACTGATGGCTG
1 TGTACCGATCATATTACTACTACTGATGGCTT-TGTGCCGATCATATTACCATTACTGATGGCTG
* * * *
30047800 TGTGCCGATCATATTACTACTACTAATGGCTTTGTGCCGATCATACTACTATTACTGATGGCTG
1 TGTACCGATCATATTACTACTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTG
* *
30047864 TGTACCGGTCATATTACTACTACTGATGGCTTTGTGCCAATCATATTAC
1 TGTACCGATCATATTACTACTACTGATGGCTTTGTGCCGATCATATTAC
30047913 TGTACTTATG
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
64 98 0.98
65 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (64 bp):
TGTACCGATCATATTACTACTACTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTG
Found at i:30047900 original size:96 final size:95
Alignment explanation
Indices: 30047734--30047926 Score: 278
Period size: 96 Copynumber: 2.0 Consensus size: 95
30047724 TATTGCTGGA
* * *
30047734 TTTGTACCGATCATATTACCATTACTGATGGTTGTGTACCGATCATATTACCATTACTGATGGCT
1 TTTGTACCGATCATACTACCATTACTGATGGCTGTGTACCGATCATATTACCACTACTGATGGCT
*
30047799 GTGTGCCGATCATATTACTACTACTAATGGC
66 GTGTGCCAATCATATTACT-CTACTAATGGC
* * * *
30047830 TTTGTGCCGATCATACTACTATTACTGATGGCTGTGTACCGGTCATATTACTACTACTGATGGCT
1 TTTGTACCGATCATACTACCATTACTGATGGCTGTGTACCGATCATATTACCACTACTGATGGCT
* * *
30047895 TTGTGCCAATCATATTACTGTACTTATGGC
66 GTGTGCCAATCATATTACTCTACTAATGGC
30047925 TT
1 TT
30047927 GTAGCCATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 11 0.13
96 75 0.87
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (95 bp):
TTTGTACCGATCATACTACCATTACTGATGGCTGTGTACCGATCATATTACCACTACTGATGGCT
GTGTGCCAATCATATTACTCTACTAATGGC
Found at i:30056815 original size:50 final size:51
Alignment explanation
Indices: 30056707--30056954 Score: 268
Period size: 50 Copynumber: 4.8 Consensus size: 51
30056697 ATTTGGGTAA
* *
30056707 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CTGAG---ATG
*
30056763 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-CTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGAGATG
** * *
30056813 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGCTCGCACC-AAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGAGATG
** * * * *
30056863 AGAGGTCCCCCGTAAGACCATGTCTGGGAGATGGCATGGGAACCT-ATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGAGATG
** * * *
30056913 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30056955 GTAAAAGAAA
Statistics
Matches: 164, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
50 119 0.73
51 1 0.01
53 4 0.02
56 40 0.24
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGAGATG
Found at i:30064325 original size:19 final size:19
Alignment explanation
Indices: 30064286--30064322 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
30064276 CGATAGAATT
30064286 TTTTTCATAAAATAATTAA
1 TTTTTCATAAAATAATTAA
30064305 TTTTT-ATAAAATAATTAA
1 TTTTTCATAAAATAATTAA
30064323 ATTGTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTTCATAAAATAATTAA
Found at i:30064333 original size:19 final size:18
Alignment explanation
Indices: 30064292--30064334 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
30064282 AATTTTTTTC
* *
30064292 ATAAAATAATTAATTTTT
1 ATAAAATAATTAAATTGT
30064310 ATAAAATAATTAAATTGT
1 ATAAAATAATTAAATTGT
30064328 ATTAAAA
1 A-TAAAA
30064335 ATTTGAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATAAAATAATTAAATTGT
Found at i:30073838 original size:30 final size:30
Alignment explanation
Indices: 30073802--30073861 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
30073792 ATTATTTTTA
*
30073802 AAAAATTTGATTG-CTCTTTTTGTAAATATT
1 AAAAATTAGA-TGCCTCTTTTTGTAAATATT
30073832 AAAAATTAGATGCCTCTTTTTGTAAATATT
1 AAAAATTAGATGCCTCTTTTTGTAAATATT
30073862 TTCAAAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (30 bp):
AAAAATTAGATGCCTCTTTTTGTAAATATT
Found at i:30075951 original size:235 final size:235
Alignment explanation
Indices: 30075522--30075991 Score: 805
Period size: 235 Copynumber: 2.0 Consensus size: 235
30075512 CCTTTAACCG
*
30075522 AAAAACACCTAAAGACCATTTTGAGATTCGGGTCAACAATTCGTTATTGTTGGTTCATTTTTTTG
1 AAAAAAACCTAAAGACCATTTTGAGATTCGGGTCAACAATTCGTTATTGTTGGTTCATTTTTTTG
* * *
30075587 GTCTTAGCCAATTAATTTGTTATTGTTTCCTATCTATTTTATTCATTACCTTTTTTTGAAGCCAT
66 GTCTTAGCCAATTAATTTGTTATTGTTTCCTATCTATTTTATTCATTACCTCTGTGTGAAGCCAT
* * *
30075652 TAACTCTATTTTGTTACGTTTATACTGAAACGATTCTATTCTACTCAATTCACGATCAGGCATCA
131 TAACTCTATTTTGTTACGTTTAAACCGAAACGATTCTATTCTACTCAATTAACGATCAGGCATCA
30075717 CGAACGACTCGAATCAATCACGAAACGAGTTCGTATCAAA
196 CGAACGACTCGAATCAATCACGAAACGAGTTCGTATCAAA
* *
30075757 AAAAAAACCTAAATACCATTTTGAGATTTGGGTCAACAATTCGTTATTGTTGGTTCATTTTTTTG
1 AAAAAAACCTAAAGACCATTTTGAGATTCGGGTCAACAATTCGTTATTGTTGGTTCATTTTTTTG
30075822 GTCTTAGCCAATTAATTTGTTATTGTTTCCTATCTATTTTATTCATTACCTCTGTGTGAAGCCAT
66 GTCTTAGCCAATTAATTTGTTATTGTTTCCTATCTATTTTATTCATTACCTCTGTGTGAAGCCAT
* **
30075887 TAACTCTATTTTGTTACTTTTAAACCGAAACGATTCTATTCTACTCAATTAACGATTGGGCATCA
131 TAACTCTATTTTGTTACGTTTAAACCGAAACGATTCTATTCTACTCAATTAACGATCAGGCATCA
* * *
30075952 CTAACGACTCGAATCAATCACGAAATGAGTTTGTATCAAA
196 CGAACGACTCGAATCAATCACGAAACGAGTTCGTATCAAA
30075992 TTGGTATCAG
Statistics
Matches: 220, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
235 220 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (235 bp):
AAAAAAACCTAAAGACCATTTTGAGATTCGGGTCAACAATTCGTTATTGTTGGTTCATTTTTTTG
GTCTTAGCCAATTAATTTGTTATTGTTTCCTATCTATTTTATTCATTACCTCTGTGTGAAGCCAT
TAACTCTATTTTGTTACGTTTAAACCGAAACGATTCTATTCTACTCAATTAACGATCAGGCATCA
CGAACGACTCGAATCAATCACGAAACGAGTTCGTATCAAA
Found at i:30076077 original size:11 final size:11
Alignment explanation
Indices: 30076061--30076102 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
30076051 AGCATCTTCG
30076061 AAAAAAAATTC
1 AAAAAAAATTC
* *
30076072 AAAAAAATTTGA
1 AAAAAAAATT-C
30076084 AAAAAAAATTC
1 AAAAAAAATTC
30076095 AAAAAAAA
1 AAAAAAAA
30076103 AATTTAGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:30076078 original size:12 final size:12
Alignment explanation
Indices: 30076061--30076103 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
30076051 AGCATCTTCG
30076061 AAAAAAAATTC-
1 AAAAAAAATTCA
* *
30076072 AAAAAAATTTGA
1 AAAAAAAATTCA
30076084 AAAAAAAATTCA
1 AAAAAAAATTCA
30076096 AAAAAAAA
1 AAAAAAAA
30076104 ATTTAGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:30076088 original size:13 final size:13
Alignment explanation
Indices: 30076072--30076108 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
30076062 AAAAAAATTC
*
30076072 AAAAAAATTTGAA
1 AAAAAAATTTAAA
*
30076085 AAAAAAATTCAAA
1 AAAAAAATTTAAA
30076098 AAAAAAATTTA
1 AAAAAAATTTA
30076109 GTTTCTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAAAAATTTAAA
Found at i:30076163 original size:14 final size:14
Alignment explanation
Indices: 30076144--30076182 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
30076134 GATATCAAGT
*
30076144 TGAAAAAAAAATTA
1 TGAAAAAAAAATCA
* *
30076158 TGAAAAAAAAGTCG
1 TGAAAAAAAAATCA
30076172 TGAAAAAAAAA
1 TGAAAAAAAAA
30076183 AAGCTAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.69, C:0.03, G:0.13, T:0.15
Consensus pattern (14 bp):
TGAAAAAAAAATCA
Found at i:30080618 original size:25 final size:25
Alignment explanation
Indices: 30080582--30080642 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
30080572 CTATTAAATT
*
30080582 TTAATTTAATTATCTAAT-TTTTCA-A
1 TTAATTAAATTAT-TAATATTTT-ATA
*
30080607 TTTATTAAATTATTAATATTTTATA
1 TTAATTAAATTATTAATATTTTATA
30080632 TTAATTAAATT
1 TTAATTAAATT
30080643 TTTGAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATTAATATTTTATA
Found at i:30083375 original size:14 final size:14
Alignment explanation
Indices: 30083356--30083386 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
30083346 ATATAAAGTT
30083356 ATTTTTAATAATTC
1 ATTTTTAATAATTC
30083370 ATTTTTAATAATTC
1 ATTTTTAATAATTC
30083384 ATT
1 ATT
30083387 AATAAATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTTTAATAATTC
Found at i:30098426 original size:40 final size:39
Alignment explanation
Indices: 30098285--30098418 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 39
30098275 AGCGACACTT
* *
30098285 TTAGCGGCGTTTGGACAAAAAATGCCGGTAAAAATCGAGCA
1 TTAGCGGCGTTT-TA-AAAAAATGCCGCTAAAAATCGAGCA
* * *** * *
30098326 TTAGCTGCGCTTTATGGAAATCGCCACTAAAGATCGAGCA
1 TTAGCGGCGTTTTAAAAAAAT-GCCGCTAAAAATCGAGCA
* *
30098366 TTAGCAGTGTTTTTAAAAAAATGCCGCTAAAAAT-GAGCA
1 TTAGCGGCG-TTTTAAAAAAATGCCGCTAAAAATCGAGCA
30098405 TTAGCGGCGTTTTA
1 TTAGCGGCGTTTTA
30098419 CAGAAAAACG
Statistics
Matches: 72, Mismatches: 19, Indels: 7
0.73 0.19 0.07
Matches are distributed among these distances:
38 5 0.07
39 16 0.22
40 33 0.46
41 18 0.25
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (39 bp):
TTAGCGGCGTTTTAAAAAAATGCCGCTAAAAATCGAGCA
Found at i:30098438 original size:40 final size:40
Alignment explanation
Indices: 30098313--30098438 Score: 121
Period size: 40 Copynumber: 3.1 Consensus size: 40
30098303 AAAATGCCGG
* * * * *
30098313 TAAAAATCGAGCATTAGCTGCGCTTTATGGAAATCGCCAC
1 TAAAAATCGAGCATTAGCAGCGTTTTAAGAAAAACGCCAC
* * * *
30098353 TAAAGATCGAGCATTAGCAGTGTTTTTAA-AAAAATGCCGC
1 TAAAAATCGAGCATTAGCAGCG-TTTTAAGAAAAACGCCAC
*
30098393 TAAAAAT-GAGCATTAGCGGCGTTTTACAGAAAAACGCCAC
1 TAAAAATCGAGCATTAGCAGCGTTTTA-AGAAAAACGCCAC
*
30098433 AAAAAA
1 TAAAAA
30098439 CAAAAGTCCA
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
38 5 0.07
39 13 0.19
40 46 0.68
41 4 0.06
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (40 bp):
TAAAAATCGAGCATTAGCAGCGTTTTAAGAAAAACGCCAC
Found at i:30098529 original size:41 final size:41
Alignment explanation
Indices: 30098472--30098590 Score: 193
Period size: 41 Copynumber: 2.9 Consensus size: 41
30098462 CTTACCTTTC
*
30098472 GGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCACTAATGCT
1 GGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCACTAATGAT
* * *
30098513 GGGGGTTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGAT
1 GGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCACTAATGAT
*
30098554 GGGGGCTTTAGCGGCGTTTTTGGAAAAACGCCACTAA
1 GGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCACTAA
30098591 AAACTTTTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.28
Consensus pattern (41 bp):
GGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCACTAATGAT
Found at i:30098728 original size:23 final size:26
Alignment explanation
Indices: 30098675--30098729 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
30098665 TCTTCAGAAA
*
30098675 AAAATAATAACACGTAGAAATAATTT
1 AAAATAATAACACATAGAAATAATTT
* *
30098701 GAAATAA-AACACATGGAAA-AA-TT
1 AAAATAATAACACATAGAAATAATTT
30098724 AAAATA
1 AAAATA
30098730 CTATTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 7 0.28
24 2 0.08
25 10 0.40
26 6 0.24
ACGTcount: A:0.62, C:0.07, G:0.09, T:0.22
Consensus pattern (26 bp):
AAAATAATAACACATAGAAATAATTT
Found at i:30099248 original size:21 final size:20
Alignment explanation
Indices: 30099214--30099254 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
30099204 GTATGGATTA
*
30099214 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
30099234 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
30099255 AGGGGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:30099266 original size:7 final size:7
Alignment explanation
Indices: 30099246--30099301 Score: 58
Period size: 7 Copynumber: 7.4 Consensus size: 7
30099236 GATTTAAGGT
30099246 TTAGGGG
1 TTAGGGG
30099253 TTAGGGG
1 TTAGGGG
30099260 TTAGGGG
1 TTAGGGG
*
30099267 TTTATGGGT
1 -TTA-GGGG
30099276 TTAGGGG
1 TTAGGGG
*
30099283 TTAGATGCG
1 TTAG--GGG
30099292 TTAGGGG
1 TTAGGGG
30099299 TTA
1 TTA
30099302 AAAGTTAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 26 0.63
8 6 0.15
9 9 0.22
ACGTcount: A:0.16, C:0.02, G:0.46, T:0.36
Consensus pattern (7 bp):
TTAGGGG
Found at i:30099295 original size:16 final size:16
Alignment explanation
Indices: 30099246--30099301 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
30099236 GATTTAAGGT
30099246 TTAGGGGTTAG--GGG
1 TTAGGGGTTAGATGGG
*
30099260 TTAGGGGTT-TATGGG
1 TTAGGGGTTAGATGGG
*
30099275 TTTAGGGGTTAGATGCG
1 -TTAGGGGTTAGATGGG
30099292 TTAGGGGTTA
1 TTAGGGGTTA
30099302 AAAGTTAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 9 0.26
15 3 0.09
16 19 0.54
17 4 0.11
ACGTcount: A:0.16, C:0.02, G:0.46, T:0.36
Consensus pattern (16 bp):
TTAGGGGTTAGATGGG
Found at i:30099361 original size:290 final size:290
Alignment explanation
Indices: 30098970--30099705 Score: 945
Period size: 290 Copynumber: 2.5 Consensus size: 290
30098960 TATGGTTTAA
** * ** *
30098970 GGGTTAAGATTTA-AGGTTTAAGGGTTAGACGTTAGGGGTTTAGGGGTTAGGGATTCAGGGGTCG
1 GGGTTAAGGGTTAGAGGTTTAGGGGTTAGACGTTAGGGG-TTAAAGGTTAGGGATTTA-GGGTCG
* * *
30099034 AGTTAGGACTTTGGGCGTTTAGATTAA-T-TTTTTTAATTTATATTTTAAATATGTTTTTATATA
64 GGTTAGG-GTTTTGG-GTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTTTTATATA
* * *
30099097 ATTGTAAAAGAGATAATAATAAATATGTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAT
127 ATTGTAAAAGAGATAATAATAAATATGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAG
** * *
30099162 ATTTAAGGTTGGTTTAGGAGTTCATATTTTAAGATTTAGGGAGTATGGA-TTAGGGATTATGGTT
192 ATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGATTTAGGGAGTATGGATTTAAGGATTATGGAT
* *
30099226 TAAGGGTT-GGGATTTAA-G-G-TTTAGGGGTTAG
257 TAAGGATTAGGG-TTTAAGGAGATTTAAGGGTTAG
* *
30099257 GGGTTAGGGGTTTATG-GGTTTAGGGGTTAGATGCGTTAGGGGTTAAAAGTTAGGGATTTAGTGG
1 GGGTTAAGGG-TTA-GAGGTTTAGGGGTTAGA--CGTTAGGGGTTAAAGGTTAGGGATTTAG-GG
*
30099321 TCGGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATAT
61 TCGGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTTTTATAT
* *
30099386 AATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTATGGTATATGATTAATTTAA
126 AATTGTAAAAGAGATAATAATAAATATGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAA
*
30099451 GATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATTTAAGGATTATGGA
191 GATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGATTTAGGGAGTATGGATTTAAGGATTATGGA
* *
30099516 TTAAGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAG
256 TTAAGGATTAGGGTTTAA--G--GAGATTTAAGGGTTAG
* * * * *
30099555 GGGTTAAGGGTTAGACG-TTAGGGGTTAAAAGTTAGGGATTTAAGGTTTAGGGATTTAAGGGTCG
1 GGGTTAAGGGTTAGAGGTTTAGGGGTTAGACGTTAGGGGTTAAAGG-TTAGGGATTT-AGGGTCG
* *
30099619 GGTTAAGGTTTTGAGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTT-TATAA
64 GGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTT-TTTATATAA
30099683 TTGTAAAAGAGATAATAATAAAT
128 TTGTAAAAGAGATAATAATAAAT
30099706 CAAATATATT
Statistics
Matches: 392, Mismatches: 36, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
287 7 0.02
288 14 0.04
289 21 0.05
290 165 0.42
291 34 0.09
292 2 0.01
294 12 0.03
295 96 0.24
296 17 0.04
297 5 0.01
298 19 0.05
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (290 bp):
GGGTTAAGGGTTAGAGGTTTAGGGGTTAGACGTTAGGGGTTAAAGGTTAGGGATTTAGGGTCGGG
TTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTTTTATATAATTG
TAAAAGAGATAATAATAAATATGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTT
AAGGCCGGTTTAGGAGTTCATATTTTAAGATTTAGGGAGTATGGATTTAAGGATTATGGATTAAG
GATTAGGGTTTAAGGAGATTTAAGGGTTAG
Found at i:30099521 original size:14 final size:14
Alignment explanation
Indices: 30099495--30099535 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
30099485 GTTTAGGGAG
30099495 TATGGATTTAAGGAT
1 TATGGA-TTAAGGAT
30099510 TATGGATTAAGGAT
1 TATGGATTAAGGAT
*
30099524 TATGGTTTAAGG
1 TATGGATTAAGG
30099536 GTTGAGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (14 bp):
TATGGATTAAGGAT
Found at i:30099551 original size:21 final size:21
Alignment explanation
Indices: 30099479--30099559 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
30099469 GAGTTCATAT
30099479 TTTAAGGTTTAGGGAGTATG-GA
1 TTTAAGGTTTAGGG-GT-TGAGA
* * * *
30099501 TTTAAGGATTATGGATTAAGGA
1 TTTAAGGTTTAGGGGTTGA-GA
* *
30099523 -TTATGGTTTAAGGGTTGAGA
1 TTTAAGGTTTAGGGGTTGAGA
30099543 TTTAAGGTTTAGGGGTT
1 TTTAAGGTTTAGGGGTT
30099560 AAGGGTTAGA
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
20 3 0.07
21 28 0.62
22 14 0.31
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (21 bp):
TTTAAGGTTTAGGGGTTGAGA
Found at i:30099604 original size:15 final size:15
Alignment explanation
Indices: 30099586--30099614 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30099576 GGGTTAAAAG
30099586 TTAGGGATTTAAGGT
1 TTAGGGATTTAAGGT
30099601 TTAGGGATTTAAGG
1 TTAGGGATTTAAGG
30099615 GTCGGGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (15 bp):
TTAGGGATTTAAGGT
Found at i:30099746 original size:295 final size:300
Alignment explanation
Indices: 30099194--30099747 Score: 712
Period size: 295 Copynumber: 1.8 Consensus size: 300
30099184 CATATTTTAA
* * * *
30099194 GATTTAGGGAGTATGGATTAGGGATTATGGTTTAAGGGTTGGGATTTAAGGTTTAGGGGTTAGGG
1 GATTTAAGGAGTATGGATTAAGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAAGG
* ** *
30099259 GTTAGGGGTTTATGGGTTTAGGGGTTAGATGCGTTAGGGGTTAAAAGTTAGGGATTTAGTGGTCG
66 GTTA--GG--TA-GCGTTTAGGGGTTAGATAAGTTAGGGATTAAAAGTTAGGGATTTAGTGGTCG
* *
30099324 GGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAAT
126 GGTTAAGGTTTTGAGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAAT
*** * *** ** * *
30099389 TGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTATGGTATATGATTAATTTAAGAT
191 TGTAAAAGAGATAATAATAAATAAATATAGGGAAATTAGAGTATAGTATATAATTAATTTAAGAT
30099454 TTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATG
256 TTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATG
*
30099499 GATTTAAGGATTATGGATTAAGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAAGG
1 GATTTAAGGAGTATGGATTAAGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAAGG
* *
30099564 GTTA-G-A-CG-TTAGGGGTTA-A-AAGTTAGGGATTTAAGGTTTAGGGATTTAAG-GGTCGGGT
66 GTTAGGTAGCGTTTAGGGGTTAGATAAGTTAGGGATTAAAAG-TTAGGGATTT-AGTGGTCGGGT
*
30099622 TAAGGTTTTGAGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTTTATAATTGT
129 TAAGGTTTTGAGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGT
** *
30099687 AAAAGAGATAATAATAAATCAAATATATTGAAATTATGAGTATAGTTTA-AATT-ATTTAAGA
194 AAAAGAGATAATAATAAAT-AAATATAGGGAAATTA-GAGTATAGTATATAATTAATTTAAGA
30099748 GATATATAAT
Statistics
Matches: 217, Mismatches: 28, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
294 12 0.06
295 108 0.50
296 22 0.10
297 9 0.04
299 1 0.00
302 1 0.00
305 64 0.29
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.42
Consensus pattern (300 bp):
GATTTAAGGAGTATGGATTAAGGATTATGGTTTAAGGGTTGAGATTTAAGGTTTAGGGGTTAAGG
GTTAGGTAGCGTTTAGGGGTTAGATAAGTTAGGGATTAAAAGTTAGGGATTTAGTGGTCGGGTTA
AGGTTTTGAGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTGTAA
AAGAGATAATAATAAATAAATATAGGGAAATTAGAGTATAGTATATAATTAATTTAAGATTTAAG
GCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATG
Found at i:30100280 original size:49 final size:48
Alignment explanation
Indices: 30100226--30100372 Score: 117
Period size: 49 Copynumber: 3.1 Consensus size: 48
30100216 ATAAAATACA
30100226 AAATAAAATTTTTTTAGCATAAGAAAACGACGTCATTTTGTTCAAAATG
1 AAATAAAA-TTTTTTAGCATAAGAAAACGACGTCATTTTGTTCAAAATG
* * ** * * * ** *
30100275 AAAT--AATTTTTT-GCACAA-AAAA-TAAATCAATGTATAAAAAATA
1 AAATAAAATTTTTTAGCATAAGAAAACGACGTCATTTTGTTCAAAATG
* *
30100318 AAATAAAAAATTTTTAGCAT-AGCAAAACGGCGTCATTTTGTTCAAAATG
1 AAAT-AAAATTTTTTAGCATAAG-AAAACGACGTCATTTTGTTCAAAATG
30100367 AAATAA
1 AAATAA
30100373 TTTTAAAAAA
Statistics
Matches: 69, Mismatches: 22, Indels: 15
0.65 0.21 0.14
Matches are distributed among these distances:
43 16 0.23
44 4 0.06
45 5 0.07
46 14 0.20
47 5 0.07
48 6 0.09
49 19 0.28
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (48 bp):
AAATAAAATTTTTTAGCATAAGAAAACGACGTCATTTTGTTCAAAATG
Found at i:30100299 original size:92 final size:92
Alignment explanation
Indices: 30100200--30100376 Score: 284
Period size: 92 Copynumber: 1.9 Consensus size: 92
30100190 AAAACGCTGC
* * **
30100200 AAAAATAAATCAATTTATAAAATACAAAATAAAATTTTTTTAGCATAAG-AAAACGACGTCATTT
1 AAAAATAAATCAATGTATAAAAAACAAAATAAAAAATTTTTAGCAT-AGCAAAACGACGTCATTT
30100264 TGTTCAAAATGAAATAATTTTTTGCACA
65 TGTTCAAAATGAAATAATTTTTTGCACA
* *
30100292 AAAAATAAATCAATGTATAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTT
1 AAAAATAAATCAATGTATAAAAAACAAAATAAAAAATTTTTAGCATAGCAAAACGACGTCATTTT
30100357 GTTCAAAATGAAATAATTTT
66 GTTCAAAATGAAATAATTTT
30100377 AAAAAAGCCG
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
91 2 0.03
92 76 0.97
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.32
Consensus pattern (92 bp):
AAAAATAAATCAATGTATAAAAAACAAAATAAAAAATTTTTAGCATAGCAAAACGACGTCATTTT
GTTCAAAATGAAATAATTTTTTGCACA
Done.